nandb

2.1.1

Number and Brightness Image Analysis

0packages depend

7.9Kdownloads / year

94.9%test coverage

13/13checks pass

Overview

About

Maintained by Rory NolanFirst published 2017-05-2915 releasesCRAN page ↗GitHub ↗

Calculation of molecular number and brightness from fluorescence microscopy image series. The software was published in a 2016 paper doi:10.1093/bioinformatics/btx434. The seminal paper for the technique is Digman et al. 2008 doi:10.1529/biophysj.107.114645. A review of the technique was published in 2017 doi:10.1016/j.ymeth.2017.12.001.

Install

R (CRAN)pak (dev)Ubuntu (r2u)openSUSE (OBS)

install.packages("nandb", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("rorynolan/nandb")

Development version from rorynolan/nandb. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-nandb

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-nandb

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 6.2 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.40

94.9%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-07-11
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-07-10
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-22
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 2 earlier snapshots

ERROR2026-04-18
13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 190 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 15%
Documented parameters: 99%
Return-value docs: 67%
References docs: 16%

Downloads

7.9K

CRAN downloads in the past year

Rank #5,600 · ~22/day · ~658/mo

Releases R versions

Daily download trend is not available in this view yet.

38230 days

1.7K90 days

7.9K1 year

Compare downloads with other packages →

Also on408 r2u23 autocran

Repository

GitHub ↗ rorynolan/nandb

2Stars

1Forks

1Open issues

0Open PRs

7Releases

195Commits

2Contributors

195 commits · Last activity 2025-01-27

Stars over time

2018-04-28 · 22026-07-07 · 2

Repository practices

Upstream repositoryBeta

6 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/rorynolan/nandb on 2026-07-19.

Continuous integration (1)

GitHub Actions

CRAN release process (1)

cran-comments.md

Docs source (1)

README.Rmd

Research and citation (1)

codemeta.json

Show all practices

Automation and maintenance (1)

pre-commit

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

30 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.1

Imports (19)

assertthat autothresholdr BBmisc checkmate (>= 1.9.3)detrendr dplyr filesstrings ggplot2 glue ijtiff magrittr purrr Rcpp reshape2 rlang stringr (>= 1.4)utilsviridis withr

LinkingTo (1)

Rcpp

Suggests (11)

abind covr gridExtra knitr magick matrixStats pacman rmarkdown spelling testthat tidyr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (3)

Maintainer (1)

Rory Nolan

Author, Maintainer, Copyright holder

Authors (1)

Rory Nolan

Author, Maintainer, Copyright holder

Contributors (2)

Luis Alvarez

Contributor, Copyright holder

Sergi Padilla-Parra

Contributor, Thesis advisor, Copyright holder

Rory Nolan

Author, Maintainer, Copyright holder

Luis Alvarez

Contributor, Copyright holder

Sergi Padilla-Parra

Contributor, Thesis advisor, Copyright holder

Package Timeline

15 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
2.1.1Latest
2025-05-07 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
2.1.0
2021-05-17 · diff ↗
2.0.8
2021-04-21 · diff ↗
2.0.7
2020-05-08 · diff ↗
R
R 4.0.0 released · 2020-04-24
2.0.6
2020-03-16 · diff ↗
2.0.5
2019-08-22 · diff ↗
2.0.4
2019-07-08 · diff ↗
2.0.3
2019-06-28 · diff ↗
2.0.2
2019-06-17 · diff ↗

Show 11 earlier events

2.0.1
2019-05-31 · diff ↗
R
R 3.6.0 released · 2019-04-26
2.0.0
2018-11-11 · diff ↗
1.0.1
2018-05-08 · diff ↗
1.0.0
2018-04-28 · diff ↗
unarchivedReturned to CRAN
2018-04-27
R
R 3.5.0 released · 2018-04-23
archivedRemoved from CRAN
2018-01-04
errors were not corrected despite reminders
0.2.1
2017-07-11 · diff ↗
0.2.0
2017-05-29
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2017-05-29
Total releases: 15 / 9 yrs
License: BSD_3_clause + file LICENSE OSI
Minimum R: ≥ 3.1
Download size: 649 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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